Magnetic Resonance Imaging Datasets Research Articles

EVOLVE: Learning volume-adaptive phases for fast 3D magnetic resonance scan and image reconstruction

Compared with 2D Magnetic Resonance Imaging (MRI), 3D MRI is more powerful for generating high resolution images and visualizing small anatomical structures. However, 3D MRI acquisition is much more time-consuming due to the significantly larger number of phase encoding steps, which is directly proportional to the acquisition time. This paper proposes to select a volume-adaptive small subset of phases to accelerate 3D MRI scans and accurately reconstruct 3D images from the corresponding undersampled 3D k-space data. To avoid the delays caused by computationally expensive yet high-performance volume-adaptive phase selection, we propose a strategy of selecting multiple phases based on sampled slices from the volume during idle time within the repetition time (TR). To enhance the performance of phase selection, we propose a novel three-directional cross-attention phase selection network. Additionally, to improve the reconstruction performance, we introduce a three-directional slice-wise volume reconstruction. To the best of our knowledge, the proposed method, which we called EVOLVE (learning volume-adaptive phases), is the first work that learns volume-adaptive phases for fast 3D MRI. The extensive experimental results on a large-scale 3D MRI dataset at various acceleration factors demonstrate the substantial performance improvement in terms of image reconstruction achieved by using the EVOLVE method for phase selection compared to traditional learning free 3D MRI phase selection methods.

MSA-YOLOv5: Multi-scale attention-based YOLOv5 for automatic detection of acute ischemic stroke from multi-modality MRI images

Background and objectiveAcute ischemic stroke (AIS) is a common neurological disorder characterized by the sudden onset of cerebral ischemia, leading to functional impairments. Swift and precise detection of AIS lesions is crucial for stroke diagnosis and treatment but poses a significant challenge. This study aims to leverage multimodal fusion technology to combine complementary information from various modalities, thereby enhancing the detection performance of AIS target detection models. MethodsIn this retrospective study of AIS, we collected data from 316 AIS patients and created a multi-modality magnetic resonance imaging (MRI) dataset. We propose a Multi-Scale Attention-based YOLOv5 (MSA-YOLOv5), targeting challenges such as small lesion size and blurred borders at low resolutions. Specifically, we augment YOLOv5 with a prediction head to detect objects at various scales. Next, we replace the original prediction head with a Multi-Scale Swin Transformer Prediction Head (MS-STPH), which reduces computational complexity to linear levels and enhances the ability to detect small lesions. We incorporate a Second-Order channel attention (SOCA) module to adaptively rescale channel features by employing second-order feature statistics for more discriminative representations. Finally, we further validate the effectiveness of our method using the ISLES 2022 dataset. ResultsOn our in-house AIS dataset, MSA-YOLOv5 achieves a 79.0% mAP0.5, substantially surpassing other single-stage models. Compared to two-stage models, it maintains a comparable performance level while significantly reducing the number of parameters and resolution. On the ISLES 2022 dataset, MSA-YOLOv5 attains an 80.0% mAP0.5, outperforming other network models by a considerable margin. MS-STPH and SOCA modules can significantly increase mAP0.5 by 2.7% and 1.9%, respectively. Visualization interpretability results show that the proposed MSA-YOLOv5 restricts high attention in the small regions of AIS lesions. ConclusionsThe proposed MSA-YOLOv5 is capable of automatically and effectively detecting acute ischemic stroke lesions in multimodal images, particularly for small lesions and artifacts. Our enhanced model reduces the number of parameters while improving detection accuracy. This model can potentially assist radiologists in providing more accurate diagnosis, and enable clinicians to develop better treatment plans.

Disruptions of Hierarchical Cortical Organization in Early Psychosis and Schizophrenia

BackgroundThe cerebral cortex is organized hierarchically along an axis that spans unimodal sensorimotor to transmodal association areas. This hierarchy is often characterized using low-dimensional embeddings, termed gradients, of interregional functional coupling estimates measured with resting-state functional magnetic resonance imaging. Such analyses may offer insights into the pathophysiology of schizophrenia, which has been frequently linked to dysfunctional interactions between association and sensorimotor areas. MethodsTo examine disruptions of hierarchical cortical function across distinct stages of psychosis, we applied diffusion map embedding to 2 independent functional magnetic resonance imaging datasets: one comprising 114 patients with early psychosis and 48 control participants, and the other comprising 50 patients with established schizophrenia and 121 control participants. Then, we analyzed the primary sensorimotor-to-association and secondary visual-to-sensorimotor gradients of each participant in both datasets. ResultsThere were no significant differences in regional gradient scores between patients with early psychosis and control participants. Patients with established schizophrenia showed significant differences in the secondary, but not primary, gradient compared with control participants. Gradient differences in schizophrenia were characterized by lower within-network dispersion in the dorsal attention (false discovery rate [FDR]–corrected p [pFDR] < .001), visual (pFDR = .003), frontoparietal (pFDR = .018), and limbic (pFDR = .020) networks and lower between-network dispersion between the visual network and other networks (pFDR < .001). ConclusionsThese findings indicate that differences in cortical hierarchical function occur along the secondary visual-to-sensorimotor axis rather than the primary sensorimotor-to-association axis as previously thought. The absence of differences in early psychosis suggests that visual-sensorimotor abnormalities may emerge as the illness progresses.

SOFNet: Optical-flow based large-scale slice augmentation of brain MRI

Brain magnetic resonance imaging (MRI) data from multiple centers often exhibit variations in imaging conditions, such as the types of nuclear magnetic resonance instruments used and the presence of random noise. Additionally, discrepancies in the gap between MRI slices further complicate the usability of the data for advanced artificial intelligence (AI) analysis. Deep learning-based methods have emerged as practical solutions to address the challenge. However, existing research has largely overlooked the augmentation of brain MRI data, particularly when confronted with significant slice gaps, such as around 6 mm observed in our clinical brain MRI slices. In response to this research gap, we aim to develop novel approaches for augmenting brain MRI data, focusing on more significant slice gaps. To achieve this, we propose SOFNet, which utilizes the optical flow-based and encoder–decoder backbone. The primary objective of our model is to interpolate MRI slices while preserving feature consistency. Leveraging the optical flow method, which has exhibited exceptional performance compared to other super-resolution algorithms, our proposed approach has been evaluated on three distinct brain MRI datasets, explicitly addressing the gap between 4.2 mm and 6.0 mm. The experimental results highlight the significant enhancement in super-resolution quality achieved by SOFNet in generating adapted brain MRI data, surpassing other single-image super-resolution (SISR) methods in feature completion. To ensure the credibility of the interpolated brain MRI slices, we conducted experiments on three axes of MRI based on metrics such as peak signal-to-noise ratio (PSNR) and structural similarity index (SSIM). These experiments demonstrate the effectiveness of our approach in transforming low-resolution MRI data into clear and reliable brain MRIs, thereby enabling improved analysis using AI techniques.

Transfer-transfer model with MSNet: An automated accurate multiple sclerosis and myelitis detection system

PurposeMultiple sclerosis (MS) is a commonly seen neurodegenerative disorder, and early diagnosis of MS is a crucial issue to promote patient health. Since MS diagnosis is a computer vision problem, machine learning can be utilized for this purpose. Important research has used transfer learning (TL) to rapidly apply the advantages of deep learning models. Therefore, TL has developed a wide usage in computer vision applications. Herein, we describe a new algorithm in this regard, termed transfer-transfer (TT). To implement the algorithm, a multi-result machine learning model is required. In order to determine efficacy, we use transfer learning-based and hybrid feature engineering. The goal is to demonstrate the classifiability of the TT model. Materials and methodA new magnetic resonance image dataset containing three classes were collected to obtain TT model results, i.e.: (1) multiple sclerosis (MS), (2) myelitis, and (3) control patients. We have designed this model for MS detection. Thus, we named it MSNet. For deep feature engineering, MSNet with two layers of pretrained DenseNet201 and two layers of ResNet50 was incorporated into the system since these networks are highly accurate. By deploying these four layers, four feature vectors were calculated. ReliefF (RF), Chi2, and Neighborhood Component Analysis (NCA) were utilized in the feature selection phase, and the number of the feature vectors is increased from 4 to 12 (=4 × 3). By using k-nearest neighbor (kNN) and support vector machine (SVM) classifiers, 24 (=12 × 2) outputs were calculated, with the best result created by applying information fusion. TT incorporates the information fusion findings to construct a new feature vector. The most salient features were selected by deploying an iterative feature selector, and the features chosen were then classified. ResultsThe TT-based MSNet was applied to the magnetic resonance (MR) image dataset, yielding a 97.63% classification accuracy. ConclusionsThe findings and computed results demonstrate that the TT model with MSNet outperforms existing systems with increased transfer learning classifiability.

ASNET: A Novel AI Framework for Accurate Ankylosing Spondylitis Diagnosis from MRI.

Ankylosing spondylitis (AS) is a chronic, painful, progressive disease usually seen in the spine. Traditional diagnostic methods have limitations in detecting the early stages of AS. The early diagnosis of AS can improve patients' quality of life. This study aims to diagnose AS with a pre-trained hybrid model using magnetic resonance imaging (MRI). In this research, we collected a new MRI dataset comprising three cases. Furthermore, we introduced a novel deep feature engineering model. Within this model, we utilized three renowned pretrained convolutional neural networks (CNNs): DenseNet201, ResNet50, and ShuffleNet. Through these pretrained CNNs, deep features were generated using the transfer learning approach. For each pretrained network, two feature vectors were generated from an MRI. Three feature selectors were employed during the feature selection phase, amplifying the number of features from 6 to 18 (calculated as 6 × 3). The k-nearest neighbors (kNN) classifier was utilized in the classification phase to determine classification results. During the information phase, the iterative majority voting (IMV) algorithm was applied to secure voted results, and our model selected the output with the highest classification accuracy. In this manner, we have introduced a self-organized deep feature engineering model. We have applied the presented model to the collected dataset. The proposed method yielded 99.80%, 99.60%, 100%, and 99.80% results for accuracy, recall, precision, and F1-score for the collected axial images dataset. The collected coronal image dataset yielded 99.45%, 99.20%, 99.70%, and 99.45% results for accuracy, recall, precision, and F1-score, respectively. As for contrast-enhanced images, accuracy of 95.62%, recall of 80.72%, precision of 94.24%, and an F1-score of 86.96% were attained. Based on the results, the proposed method for classifying AS disease has demonstrated successful outcomes using MRI. The model has been tested on three cases, and its consistently high classification performance across all cases underscores the model's general robustness. Furthermore, the ability to diagnose AS disease using only axial images, without the need for contrast-enhanced MRI, represents a significant advancement in both healthcare and economic terms.

Removal of site effects and enhancement of signal using dual projection independent component analysis for pooling multi-site MRI data.

Combining magnetic resonance imaging (MRI) data from multi-site studies is a popular approach for constructing larger datasets to greatly enhance the reliability and reproducibility of neuroscience research. However, the scanner/site variability is a significant confound that complicates the interpretation of the results, so effective and complete removal of the scanner/site variability is necessary to realise the full advantages of pooling multi-site datasets. Independent component analysis (ICA) and general linear model (GLM) based harmonisation methods are the two primary methods used to eliminate scanner/site effects. Unfortunately, there are challenges with both ICA-based and GLM-based harmonisation methods to remove site effects completely when the signals of interest and scanner/site effects-related variables are correlated, which may occur in neuroscience studies. In this study, we propose an effective and powerful harmonisation strategy that implements dual projection (DP) theory based on ICA to remove the scanner/site effects more completely. This method can separate the signal effects correlated with site variables from the identified site effects for removal without losing signals of interest. Both simulations and vivo structural MRI datasets, including a dataset from Autism Brain Imaging Data Exchange II and a travelling subject dataset from the Strategic Research Program for Brain Sciences, were used to test the performance of a DP-based ICA harmonisation method. Results show that DP-based ICA harmonisation has superior performance for removing site effects and enhancing the sensitivity to detect signals of interest as compared with GLM-based and conventional ICA harmonisation methods.

Evidence for adaptive myelination of subcortical shortcuts for visual motion perception in healthy adults.

Conscious visual motion information follows a cortical pathway from the retina to the lateral geniculate nucleus (LGN) and on to the primary visual cortex (V1) before arriving at the middle temporal visual area (MT/V5). Alternative subcortical pathways that bypass V1 are thought to convey unconscious visual information. One flows from the retina to the pulvinar (PUL) and on to medial temporal visual area (MT); while the other directly connects the LGN to MT. Evidence for these pathways comes from non-human primates and modest-sized studies in humans with brain lesions. Thus, the aim of the current study was to reconstruct these pathways in a large sample of neurotypical individuals and to determine the degree to which these pathways are myelinated, suggesting information flow is rapid. We used the publicly available 7T (N = 98; 'discovery') and 3T (N = 381; 'validation') diffusion magnetic resonance imaging datasets from the Human Connectome Project to reconstruct the PUL-MT (including all subcompartments of the PUL) and LGN-MT pathways. We found more fibre tracts with greater density in the left hemisphere. Although the left PUL-MT path was denser, the bilateral LGN-MT tracts were more heavily myelinated, suggesting faster signal transduction. We suggest that this apparent discrepancy may be due to 'adaptive myelination' caused by more frequent use of the LGN-MT pathway that leads to greater myelination and faster overall signal transmission.

Intersubject similarity in neural representations underlies shared episodic memory content

Individuals generally form their unique memories from shared experiences, yet the neural representational mechanisms underlying this subjectiveness of memory are poorly understood. The current study addressed this important question from the cross-subject neural representational perspective, leveraging a large functional magnetic resonance imaging dataset (n = 415) of a face-name associative memory task. We found that individuals' memory abilities were predicted by their synchronization to the group-averaged, canonical trial-by-trial activation level and, to a lesser degree, by their similarity to the group-averaged representational patterns during encoding. More importantly, the memory content shared between pairs of participants could be predicted by their shared local neural activation pattern, particularly in the angular gyrus and ventromedial prefrontal cortex, even after controlling for differences in memory abilities. These results uncover neural representational mechanisms for individualized memory and underscore the constructive nature of episodic memory.

Feature extraction from MR images for detection of brain and breast tumors through mathematical modeling

Segmentation of medical images is a critical step to distinguish different regions, especially tumor. The presence of severe intensity inhomogeneity in Magnetic Resonance Imaging (MRI) and Mammogram images makes it difficult to assess and detect the boundaries of tumor. Tumor detection in medical images measures and identifies the structure of the tumor. This challenging task of extracting tumor i.e., region of interest is achieved by proposing a novel fuzzy selective model. The proposed model is mainly based on selective segmentation to detect the tumor in medical images. This model is based on the local Gaussian distribution as a fitting term with fuzzy logic to handle uncertainty and irregular borders in medical images. Due to the usage of fuzzy membership functions, it avoids local minima and converges to the tumor boundary rapidly and efficiently. In addition, to obtain more information of a local intensity, the idea of multi-scale modeling is incorporated to achieve significant results. The proposed segmentation model is applied to diverse MRI and Mammogram datasets containing both the intensity inhomogeneity and noisy images, this data is collected from local hospitals and the ground truths are created by the experts. The extensive simulation results show that the proposed segmentation method significantly outperforms existing state-of-the-art techniques using both the qualitative and quantitative assessment. Loss functions play very important role in CNN architectures, and is well studied research area. In the second part of the paper, we will be introducing a new loss function, which is introduced in the first part of the paper. Deep active contour architectures based Chan-Vese loss function works well in images with homogeneity and may not work well in images with intensity inhomogeneity. We proposed an architecture, whose loss function will be based on this new proposed model. The proposed model is used as a loss function in a newly introduced CNN architecture, which has produced improved results. The results of the new architecture are compared with other existing methods used for segmentation of medical images.

Attention-guided multi-scale learning network for automatic prostate and tumor segmentation on MRI

Background and Objective:Image-guided clinical diagnosis can be achieved by automatically and accurately segmenting prostate and prostatic cancer in male pelvic magnetic resonance imaging (MRI) images. For accurate tumor removal, the location, number, and size of prostate cancer are crucial, especially in surgical patients. The morphological differences between the prostate and tumor regions are small, the size of the tumor is uncertain, the boundary between the tumor and surrounding tissue is blurred, and the classification that separates the normal region from the tumor is uneven. Therefore, segmenting prostate and tumor on MRI images is challenging. Methods:This study offers a new prostate and prostatic cancer segmentation network based on double branch attention driven multi-scale learning for MRI. To begin, the dual branch structure provides two input images with different scales for feature coding, as well as a multi-scale attention module that collects details from different scales. The features of the double branch structure are then entered into the built feature fusion module to get more complete context information. Finally, to give a more precise learning representation, each stage is built using a deep supervision mechanism. Results:The results of our proposed network’s prostate and tumor segmentation on a variety of male pelvic MRI data sets show that it outperforms existing techniques. For prostate and prostatic cancer MRI segmentation, the dice similarity coefficient (DSC) values were 91.65% and 84.39%, respectively. Conclusions:Our method maintains high correlation and consistency between automatic segmentation results and expert manual segmentation results. Accurate automatic segmentation of prostate and prostate cancer has important clinical significance.

Deep Learning Segmentation of the Nucleus Basalis of Meynert on 3T MRI.

The nucleus basalis of Meynert is a key subcortical structure that is important in arousal and cognition and has been explored as a deep brain stimulation target but is difficult to study due to its small size, variability among patients, and lack of contrast on 3T MR imaging. Thus, our goal was to establish and evaluate a deep learning network for automatic, accurate, and patient-specific segmentations with 3T MR imaging. Patient-specific segmentations can be produced manually; however, the nucleus basalis of Meynert is difficult to accurately segment on 3T MR imaging, with 7T being preferred. Thus, paired 3T and 7T MR imaging data sets of 21 healthy subjects were obtained. A test data set of 6 subjects was completely withheld. The nucleus was expertly segmented on 7T, providing accurate labels for the paired 3T MR imaging. An external data set of 14 patients with temporal lobe epilepsy was used to test the model on brains with neurologic disorders. A 3D-Unet convolutional neural network was constructed, and a 5-fold cross-validation was performed. The novel segmentation model demonstrated significantly improved Dice coefficients over the standard probabilistic atlas for both healthy subjects (mean, 0.68 [SD, 0.10] versus 0.45 [SD, 0.11], P = .002, t test) and patients (0.64 [SD, 0.10] versus 0.37 [SD, 0.22], P < .001). Additionally, the model demonstrated significantly decreased centroid distance in patients (1.18 [SD, 0.43] mm, 3.09 [SD, 2.56] mm, P = .007). We developed the first model, to our knowledge, for automatic and accurate patient-specific segmentation of the nucleus basalis of Meynert. This model may enable further study into the nucleus, impacting new treatments such as deep brain stimulation.

An Approach to Binary Classification of Alzheimer's Disease Using LSTM.

In this study, we use LSTM (Long-Short-Term-Memory) networks to evaluate Magnetic Resonance Imaging (MRI) data to overcome the shortcomings of conventional Alzheimer's disease (AD) detection techniques. Our method offers greater reliability and accuracy in predicting the possibility of AD, in contrast to cognitive testing and brain structure analyses. We used an MRI dataset that we downloaded from the Kaggle source to train our LSTM network. Utilizing the temporal memory characteristics of LSTMs, the network was created to efficiently capture and evaluate the sequential patterns inherent in MRI scans. Our model scored a remarkable AUC of 0.97 and an accuracy of 98.62%. During the training process, we used Stratified Shuffle-Split Cross Validation to make sure that our findings were reliable and generalizable. Our study adds significantly to the body of knowledge by demonstrating the potential of LSTM networks in the specific field of AD prediction and extending the variety of methods investigated for image classification in AD research. We have also designed a user-friendly Web-based application to help with the accessibility of our developed model, bridging the gap between research and actual deployment.

WA-ResUNet: A Focused Tail Class MRI Medical Image Segmentation Algorithm.

Medical image segmentation can effectively identify lesions in medicine, but some small and rare lesions cannot be well identified. Existing studies do not take into account the uncertainty of the occurrence of diseased tissue, and the problem of long-tailed distribution of medical data. Meanwhile, the grayscale image obtained from Magnetic Resonance Imaging (MRI) detection has problems, such as the features being difficult to extract and invalid features being difficult to distinguish. In order to solve these problems, we propose a new weighted attention ResUNet (WA-ResUNet) and a class weight formula based on the number of images contained in the class, which improves the performance of the model in the low-frequency class and the overall effect of the model by improving the degree of attention paid to the valid features and invalid ones and rebalancing the learning efficiency among the classes. We evaluated our method on an uterine MRI dataset and compared it with the ResUNet. WA-ResUNet increased Intersection over Union (IoU) in the low-frequency class (Nabothian cysts) by 21.87%, and the overall mIoU increased by more than 6.5%.

PFP-HOG: Pyramid and Fixed-Size Patch-Based HOG Technique for Automated Brain Abnormality Classification with MRI.

Detecting neurological abnormalities such as brain tumors and Alzheimer's disease (AD) using magnetic resonance imaging (MRI) images is an important research topic in the literature. Numerous machine learning models have been used to detect brain abnormalities accurately. This study addresses the problem of detecting neurological abnormalities in MRI. The motivation behind this problem lies in the need for accurate and efficient methods to assist neurologists in the diagnosis of these disorders. In addition, many deep learning techniques have been applied to MRI to develop accurate brain abnormality detection models, but these networks have high time complexity. Hence, a novel hand-modeled feature-based learning network is presented to reduce the time complexity and obtain high classification performance. The model proposed in this work uses a new feature generation architecture named pyramid and fixed-size patch (PFP). The main aim of the proposed PFP structure is to attain high classification performance using essential feature extractors with both multilevel and local features. Furthermore, the PFP feature extractor generates low- and high-level features using a handcrafted extractor. To obtain the high discriminative feature extraction ability of the PFP, we have used histogram-oriented gradients (HOG); hence, it is named PFP-HOG. Furthermore, the iterative Chi2 (IChi2) is utilized to choose the clinically significant features. Finally, the k-nearest neighbors (kNN) with tenfold cross-validation is used for automated classification. Four MRI neurological databases (AD dataset, brain tumor dataset 1, brain tumor dataset 2, and merged dataset) have been utilized to develop our model. PFP-HOG and IChi2-based models attained 100%, 94.98%, 98.19%, and 97.80% using the AD dataset, brain tumor dataset1, brain tumor dataset 2, and merged brain MRI dataset, respectively. These findings not only provide an accurate and robust classification of various neurological disorders using MRI but also hold the potential to assist neurologists in validating manual MRI brain abnormality screening.

A review on detecting brain tumors using deep learning and magnetic resonance images

Early detection and treatment in the medical field offer a critical opportunity to survive people. However, the brain has a significant role in human life as it handles most human body activities. Accurate diagnosis of brain tumors dramatically helps speed up the patient's recovery and the cost of treatment. Magnetic resonance imaging (MRI) is a commonly used technique due to the massive progress of artificial intelligence in medicine, machine learning, and recently, deep learning has shown significant results in detecting brain tumors. This review paper is a comprehensive article suitable as a starting point for researchers to demonstrate essential aspects of using deep learning in diagnosing brain tumors. More specifically, it has been restricted to only detecting brain tumors (binary classification as normal or tumor) using MRI datasets in 2020 and 2021. In addition, the paper presents the frequently used datasets, convolutional neural network architectures (standard and designed), and transfer learning techniques. The crucial limitations of applying the deep learning approach, including a lack of datasets, overfitting, and vanishing gradient problems, are also discussed. Finally, alternative solutions for these limitations are obtained.

Towards MR contrast independent synthetic CT generation

The use of synthetic CT (sCT) in the radiotherapy workflow would reduce costs and scan time while removing the uncertainties around working with both MR and CT modalities. The performance of deep learning (DL) solutions for sCT generation is steadily increasing, however most proposed methods were trained and validated on private datasets of a single contrast from a single scanner. Such solutions might not perform equally well on other datasets, limiting their general usability and therefore value. Additionally, functional evaluations of sCTs such as dosimetric comparisons with CT-based dose calculations better show the impact of the methods, but the evaluations are more labor intensive than pixel-wise metrics.To improve the generalization of an sCT model, we propose to incorporate a pre-trained DL model to pre-process the input MR images by generating artificial proton density, T1 and T2 maps (i.e. contrast-independent quantitative maps), which are then used for sCT generation. Using a dataset of only T2w MR images, the robustness towards input MR contrasts of this approach is compared to a model that was trained using the MR images directly. We evaluate the generated sCTs using pixel-wise metrics and calculating mean radiological depths, as an approximation of the mean delivered dose.On T2w images acquired with the same settings as the training dataset, there was no significant difference between the performance of the models. However, when evaluated on T1w images, and a wide range of other contrasts and scanners from both public and private datasets, our approach outperforms the baseline model.Using a dataset of T2w MR images, our proposed model implements synthetic quantitative maps to generate sCT images, improving the generalization towards other contrasts. Our code and trained models are publicly available.

Brain tumor detection in the Spark system

&lt;span lang="EN-US"&gt;Machine learning (ML) and computer vision systems revolutionized the world, especially deep learning (DL) for convolutional neural networks, which has proven breakthroughs in brain tumor (BT) diagnosis. This study investigates a convolutional neural network (CNN) approach for image classification for BT detection using the EfficientNetB1 architecture with global average pooling (GAP) layers in a big data setting. A classification layer is done with a softMax layer. The system is created in the Apache Spark environment. Spark system is a unified and ultra-fast analysis engine for large-scale data processing. It is mainly dedicated to big data and deep learning (DL). Experiments are carried out using the brain magnetic resonance imaging (MRI) dataset containing 3,264 MRI scans to predict the performance of the model. The dataset is decomposed into two datasets. The model's performance was assessed and compared to existing models, it yielded a high precision, precision, and f1-score. In our work, we have achieved an accuracy of 97% and a performance of 98% on a dataset of 3,064 brain MRI images.&lt;/span&gt;

Correntropy-Based Logistic Regression with Automatic Relevance Determination for Robust Sparse Brain Activity Decoding.

Recent studies have used sparse classifications to predict categorical variables from high-dimensional brain activity signals to expose human's mental states and intentions, selecting the relevant features automatically in the model training process. However, existing sparse classification models will likely be prone to the performance degradation which is caused by the noise inherent in the brain recordings. To address this issue, we aim to propose a new robust and sparse classification algorithm in this study. To this end, we introduce the correntropy learning framework into the automatic relevance determination based sparse classification model, proposing a new correntropy-based robust sparse logistic regression algorithm. To demonstrate the superior brain activity decoding performance of the proposed algorithm, we evaluate it on a synthetic dataset, an electroencephalogram (EEG) dataset, and a functional magnetic resonance imaging (fMRI) dataset. The extensive experimental results confirm that not only the proposed method can achieve higher classification accuracy in a noisy and high-dimensional classification task, but also it would select those more informative features for the decoding tasks. Integrating the correntropy learning approach with the automatic relevance determination technique will significantly improve the robustness with respect to the noise, leading to more adequate robust sparse brain decoding algorithm. It provides a more powerful approach in the real-world brain activity decoding and the brain-computer interfaces.

Automatic segmentation of rectal tumors from MRI using multiscale densely connected convolutional neural network based on attention mechanism

Rectal cancer is one of the most common malignancies in the gastrointestinal tract. Currently, magnetic resonance imaging has become a vital tool in diagnosing and treating patients with rectal cancer. Notably, early diagnosis of rectal cancer can help improve patient survival rate; however, the clinical expertize of physicians is a limiting factor. Therefore, we propose an attention-based multiscale densely connected convolutional neural network based on an attention mechanism to improve the accuracy of diagnosis by automatically segmenting rectal tumors from two-dimensional (2D) magnetic resonance images (MRI) using computer-aided diagnostic techniques. First, to address the inability of U-Net (a classical segmentation network for medical images) and extract rich semantic features and the inconsistent shape and size of tumors between different patients, we replace the conventional convolutional blocks in the U-Net network with multiscale densely connected convolutional blocks. Second, to make the network focus better on global contextual information, we add central blocks with atrous convolution in the final coding layer or the last coding layer. Finally, we add a hybrid attention mechanism to each decoder module to help the model focus on the features of the rectal tumor region. We validated the effectiveness of the proposed method using 3773 2D MRI datasets from 572 patients. The sensitivity, specificity, Dice correlation coefficient, and Hausdorff distance of MRI rectal tumor segmentation were 85.47%, 86.35%, 94.71%, and 7.88 mm, respectively. The results showed that the proposed method outperforms conventional approaches. Moreover, the proposed method has better segmentation results in the rectal tumor segmentation task and can provide physicians with the second-most important clinical diagnostic opinion.